Key Publications
van Oosterhout, C. AI-informed conservation genomics. Heredity 132, 1–4 (2024). https://doi.org/10.1038/s41437-023-00666-x
de Jong, M.J., van Oosterhout, C., Hoelzel, A.R., Janke, A. (2024). Moderating the neutralist–selectionist debate: exactly which propositions are we debating, and which arguments are valid? Biological Reviews, 99(1): 23-55. https://onlinelibrary.wiley.com/doi/pdf/10.1111/brv.13010
van Oosterhout C. (2023). AI-informed conservation genomics. Heredity, https://doi.org/10.1038/s41437-023-00666-x.
Dussex N., Morales H.E., Grossen C., Dalén L., van Oosterhout C. (2023). Purging and accumulation of genetic load in conservation. Trends in Ecology & Evolution, 38(10):961-969. https://www.cell.com/trends/ecology-evolution/fulltext/S0169-5347(23)00131-3
Urban L., Perlas A., Francino O., […], van Oosterhout C. (2023). Real‐time genomics for One Health. Molecular Systems Biology, 19:e11686. https://www.embopress.org/doi/full/10.15252/msb.202311686
Femerling G., van Oosterhout C., Feng S., Bristol R., Zhang G., Groombridge J., Gilbert M.T.P., Morales H.E. (2023). Genetic load and adaptive potential of a recovered avian species that narrowly avoided extinction. Molecular Biology & Evolution, 40(12), msad256. https://doi.org/10.1093/molbev/msad256
Pinto, A.V., Hansson, B., Patramanis, I., Morales, H.E., van Oosterhout, C. (2023). The impact of habitat loss and population fragmentation on genomic erosion. Conservation Genetics, https://link.springer.com/article/10.1007/s10592-023-01548-9
Corsi, G.I., Tichkule, S., Sannella, A.R., Vatta, P., Asnicar, F., Segata, N., Jex, A.R., van Oosterhout, C., Cacciò, S.M. (2023). Recent genetic exchanges and admixture shape the genome and population structure of the zoonotic pathogen Cryptosporidium parvum. Molecular Ecology, 32(10):2633-2645. https://onlinelibrary.wiley.com/doi/full/10.1111/mec.16556
Rogério, F., van Oosterhout, C., Ciampi‐Guillardi, M., Correr, F.H., Hosaka, G.K., Cros‐Arteil, S., Rodrigues Alves Margarido, G., Massola Junior, N.S., Gladieux, P. (2023). Means, motive and opportunity for biological invasions: Genetic introgression in a fungal pathogen. Molecular Ecology, 32(10):2428-2442. https://doi.org/10.1111/mec.16366
Bertorelle G., Raffini F., Bosse M., Bortoluzzi C., Iannucci A., Trucchi E., Morales H.E., van Oosterhout C. (2022). Genetic load: genomic estimates and applications in non-model animals. Nature Reviews Genetics, 23, 492–503. https://www.nature.com/articles/s41576-022-00448-x
Jackson H.A., Percival‐Alwyn L., Ryan C., […], van Oosterhout C. (2022). Genomic erosion in a demographically recovered bird species during conservation rescue. Conservation Biology, e13918. https://doi.org/10.1111/cobi.13918
Ye N., Han W., Toseland A., Wang Y., Fan X., Xu D., van Oosterhout C., Sea of Change Consortium, […], Mock T. (2022). The role of zinc in the adaptive evolution of polar phytoplankton. Nature Ecology and Evolution, 6(7):965-78. https://www.nature.com/articles/s41559-022-01750-x
van Oosterhout C., Marcu D., Immler S. (2022). Accounting for the genetic load in assisted reproductive technology. Clinical and Translational Medicine, 12(5):e864. https://doi.org/10.1002/ctm2.864
Tichkule, S., Myung, Y., Naung, M.T., Ansell, B.R., Guy, A.J., Srivastava, N., Mehra, S., Cacciò, S.M., Mueller, I., Barry, A.E., van Oosterhout, C., Pope, B., Ascher, D.B, Jex, A.R. (2022). VIVID: a web application for variant interpretation and visualization in multi-dimensional analyses. Molecular Biology and Evolution, 39(9), p.msac196. https://doi.org/10.1093/molbev/msac196
Tichkule, S., Cacciò, S.M., Robinson, G., Chalmers, R.M., Mueller, I., Emery-Corbin, S.J., Eibach, D., Tyler, K.M., van Oosterhout, C., Jex, A.R. (2022). Global population genomics of two subspecies of Cryptosporidium hominis during 500 years of evolution. Molecular Biology and Evolution, 39(4), p.msac056. https://doi.org/10.1093/molbev/msac056
Hansson B., Morales H.E., van Oosterhout C. (2021). Comment on individual heterozygosity predicts translocation success in threatened desert tortoises. Science, 372(6546). https://www.science.org/doi/full/10.1126/science.abh1105
van Oosterhout C. (2021). Mitigating the threat of emerging infectious diseases; a coevolutionary perspective. Virulence, 12(1):1288-1295. https://www.tandfonline.com/doi/full/10.1080/21505594.2021.1920741
Bulankova P., Sekulić M., Jallet D., Nef C., van Oosterhout C., Delmont T.O., Vercauteren I., Osuna-Cruz C.M., Vancaester E., Mock T., Sabbe K. Daboussi F., Bowler C., Vyverman W., Vandepoele K., De Veylder L. (2021). Mitotic recombination between homologous chromosomes drives genomic diversity in diatoms. Current Biology, 31(15):3221-3232. https://doi.org/10.1016/j.cub.2021.05.013
van Oosterhout C., Hall N., Ly H., Tyler K.M. (2021). COVID-19 evolution during the pandemic–Implications of new SARS-CoV-2 variants on disease control and public health policies. Virulence, 12(1):507-508. https://www.tandfonline.com/doi/full/10.1080/21505594.2021.1877066
van Oosterhout C. (2021). Conservation genetics: 50 Years and counting. Conservation Letters, 14:e12789. https://ueaeprints.uea.ac.uk/id/eprint/78134/1/Published_Version.pdf
Smallbone W, Ellison A, Poulton S, van Oosterhout C, Cable J. (2021). Depletion of MHC supertype during domestication can compromise immunocompetence. Molecular Ecology 30(3):736-746. https://doi.org/10.1111/mec.15763
Witek K., Lin X., Karki H.S., Jupe F., Witek A.I., Steuernagel B., Stam R., van Oosterhout C., Fairhead S., Heal R., Cocker J.M., Bhanvadia S., Barrett W., Wu C-H, Adachi H., Song T, Kamoun S, Vleeshouwers VGAA, Tomlinson L, Wulff BBH, Jones J.D.G. (2021) A complex resistance locus in Solanum americanum recognizes a conserved Phytophthora effector. Nature Plants 7(2):198-208. https://www.nature.com/articles/s41477-021-00854-9
Mathers TC, Wouters RH, Mugford ST, Swarbreck D, van Oosterhout C, Hogenhout SA (2021). Chromosome-scale genome assemblies of aphids reveal extensively rearranged autosomes and long-term conservation of the X chromosome. Molecular Biology and Evolution 38(3):856-75. https://doi.org/10.1093/molbev/msaa246
Farhan Ul Haque, Hernández, M., A.T. Crombie, J.C. Murrell. 2022. Identification of active gaseous alkane degraders at natural gas seeps. ISME Journal. 16: 1705-1716. https://doi.org/10.1038/s41396-022-01211-0
Macey, M., C., Pratscher, J. Crombie, A.T. and Murrell, J.C. (2020) Impact of plants on the diversity and activity of methylotrophs in soil. Microbiome, 8. (1) 1-17. https://doi.org/10.1186/s40168-020-00801-4
van Oosterhout, C., 2020. Mutation load is the spectre of species conservation. Nature Ecology & Evolution, pp.1-3. PDF
Chen, Y., Singh, A., Kaithakottil, G.G., Mathers, T.C., Gravino, M., Mugford, S.T., van Oosterhout, C., Swarbreck, D. and Hogenhout, S.A., 2020. An aphid RNA transcript migrates systemically within plants and is a virulence factor. Proceedings of the National Academy of Sciences, 117(23), pp.12763-12771. PDF
Farhan Ul Haque, M., Crombie, A.T. and Murrell, J.C. (2019) Active facultative methanotrophs at terrestrial natural gas seeps. Microbiome, 7, 1-17. doi.org/10.1186/s40168-019-0741-3
Williams, B.T., et al. Murrell, J.C., Todd, J.D. (2019) Bacteria are important dimethylsulfoniopropionate producers in coastal sediments. Nature Microbiology, 4, 1815–1825 doi.org/10.1038/s41564-019-0527-1.
Petersen, J., Vollmers, J., Ringel, V., Henner Brinkmann, H., Ellebrandt-Sperling, C., Spröer, C., Howat, A.M., Murrell, J.C., Kaster, A-K. (2019) Genetic Globetrotter – A marine plasmid hitch-hiking vast phylogenetic and geographic distances. Proceedings of the National Academy of Science (USA) 116, 20568-20573.
Mathers, T.C., Mugford, S.T., Percival‐Alwyn, L., Chen, Y., Kaithakottil, G., Swarbreck, D., Hogenhout, S.A. and van Oosterhout, C., 2019. Sex‐specific changes in the aphid DNA methylation landscape. Molecular Ecology, 28(18), pp.4228-4241. Link to paper
Nader, J.L., Mathers, T.C., Ward, B.J., Pachebat, J.A., Swain, M.T., Robinson, G., Chalmers, R.M., Hunter, P.R., Van Oosterhout, C. and Tyler, K.M., 2019. Evolutionary genomics of anthroponosis in Cryptosporidium. Nature Microbiology, 4(5), pp.826-836. Link to paper
Jouet, A., Saunders, D.G., McMullan, M., Ward, B., Furzer, O., Jupe, F., Cevik, V., Hein, I., Thilliez, G.J., Holub, E., van Oosterhout, C. Jones, J.D.G., 2019. Albugo candida race diversity, ploidy and host‐associated microbes revealed using DNA sequence capture on diseased plants in the field. New Phytologist, 221(3), pp.1529-1543. Link to paper
McGenity, T.J., Crombie, A.T. and Murrell, J.C. (2018) Microbial cycling of isoprene, the most abundantly produced biological volatile organic compound on Earth. The ISME Journal, 12, 931–941. doi:10.1038/s41396-018-0072-6
Heine, D., Holmes, N., Worsley, S., Alves dos Santos, A., Innocent, T., Scherlach, K., Patrick, E., Yu, D., Murrell, J.C., Viera, P., Boomsma, J. Hertweck, C., Hutchings, M., and Wilkinson, B. (2018) Chemical warfare between leafcutter ant symbionts and a co-evolved pathogen. Nature Communications, 9, 2208. doi: 10.1038/s41467-018-04520-1
Crombie, A.T., Larke-Mejia, N.L., Emery, H., Dawson, R., Pratscher, J., Murphy, G.P., McGenity, T.J. and Murrell, J.C. (2018) Poplar phyllosphere harbors disparate isoprene-degrading bacteria. Proceedings of the National Academy of Science (USA) 115, 13081-13086; https://doi.org/10.1073/pnas.1812668115
Phillips, K.P., Cable, J., Mohammed, R.S., Herdegen-Radwan, M., Raubic, J., Przesmycka, K.J., Van Oosterhout, C. and Radwan, J., 2018. Immunogenetic novelty confers a selective advantage in host–pathogen coevolution. Proceedings of the National Academy of Sciences, 115(7), pp.1552-1557. PDF
Mathers, T.C., Chen, Y., Kaithakottil, G., Legeai, F., Mugford, S.T., Baa-Puyoulet, P., Bretaudeau, A., Clavijo, B., Colella, S., Collin, O., Dalmay, T., …, van Oosterhout C, Swarbreck D, Hogenhout S. 2017. Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species. Genome Biology, 18(1), pp.1-20. Link to paper
Lighten, J., Papadopulos, A.S., Mohammed, R.S., Ward, B.J., Paterson, I.G., Baillie, L., Bradbury, I.R., Hendry, A.P., Bentzen, P. and Van Oosterhout, C., 2017. Evolutionary genetics of immunological supertypes reveals two faces of the Red Queen. Nature Communications, 8(1), pp.1-11. Link to paper
Lighten, J. and van Oosterhout, C., 2017. Biocontrol of common carp in Australia poses risks to biosecurity. Nature Ecology & Evolution, 1(3), pp.1-1. Link to paper
Mock, T., Otillar, R.P., Strauss, J., McMullan, M., Paajanen, P., Schmutz, J., Salamov, A., Sanges, R., Toseland, A., Ward, B.J., …, van Oosterhout, C., Grigoriev I.V., 2017. Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus. Nature, 541(7638), pp.536-540. Link to paper
Li, J., Cocker, J.M., Wright, J., Webster, M.A., McMullan, M., Dyer, S., Swarbreck, D., Caccamo, M., van Oosterhout, C. and Gilmartin, P.M., 2016. Genetic architecture and evolution of the S locus supergene in Primula vulgaris. Nature Plants, 2(12), pp.1-7. Link to paper
Lidbury, I., Murrell, J.C. and Chen, Y. (2014) Trimethylamine N-oxide metabolism by abundant marine heterotrophic bacteria Proceedings of the National Academy of Science USA, 111, 2710-2715. DOI: 10.1073/pnas.13178341
Crombie, A. T. and Murrell, J.C. (2014) Trace gas metabolic versatility of the facultative methanotroph Methylocella silvestris. Nature, 510, 148-151. DOI: 10.1038/nature13192
Vita, N., Platsaki, S., Baslé, A., Allen, S.J., Paterson, N.G., Crombie, A.T., Murrell, J.C., Waldron, K.J., Dennison, C (2015). A four-helix bundle stores copper for methane oxidation. Nature, 525, 140–143. doi:10.1038/nature14854.
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